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We present the results of a series of studies aimed at measuring user performance and model quality in two scenarios.
CAD model quality in parametric design scenarios largely determines the level of flexibility and adaptability of a 3D model (how easy it is to alter the geometry) as well as its reusability (the ability to use existing geometry in other contexts and applications).
To quantify the DTU13 model quality in the target region, DTU13-derived gravity anomalies are compared with marine gravity data (Fig. 5).
The metric is dependent on the underlying model quality, in such sense PM values around 0.5 are calculated for poor to random models, and values between 0.9 and 1.0 for high quality models.
To improve refinement stability and associated model quality in low resolution refinement, the cGMP and partial apo structures were refined with phenix.refine using dihedral restraints obtained from the higher resolution PKG Iβ cAMP structure.
Homology modeling (HM) statistics assess model quality in a more quantitative way.
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The MLE of the model thereby features in an expression of the model quality, i.e., in a role that is conceptually distinct from the estimator function.
Examples are using specialized predictors (and/or feature sets) to estimate quality losses brought about by specific distortions (e.g., compression, noise, blur) [16, 19] or to model quality preferences in a specific, narrow range of the quality scale [22].
We finally illustrate how lDDT can be used to highlight regions of low model quality, even in models of multi-domain proteins where domain movements are present.
We demonstrate that lDDT is well suited to assess local model quality, even in the presence of domain movements, while maintaining good correlation with global measures.
Our results on different fold classes show that model quality, especially in beta-sheet containing proteins, could be even further enhanced by focusing future work on long-range contacts.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com